Synergism of FAK and ROS1 inhibitors in the treatment of CDH1-deficient cancers mediated by FAK-YAP-TRX signaling
RNA-seq (gene expression) · human · 12 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 12 samples: 3 × G1 vs 3 × G2 vs 3 × G3 vs 3 × G4Groups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE229195_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA953390 and SRA study SRP431498. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM7156540 G1_1 G1
- GSM7156541 G1_2 G1
- GSM7156542 G1_3 G1
- GSM7156543 G2_1 G2
- GSM7156544 G2_2 G2
- GSM7156545 G2_3 G2
- GSM7156546 G3_1 G3
- GSM7156547 G3_2 G3
- GSM7156548 G3_3 G3
- GSM7156549 G4_1 G4
- GSM7156550 G4_2 G4
- GSM7156551 G4_3 G4
- GSE333379 AXL phosphosite mapping links FAK1 and YAP1 signaling to erlotinib resistance in EGFR-mutant lung cancer 29 samples shares fak
- GSE267153 Systems modeling of oncogenic G-protein and oncogenic GPCR signaling reveals unexpected differences in downstream signaling pathway activation [FAKi_experiment] 27 samples shares fak
- GSE255628 ERK5 suppression overcomes FAK inhibitor resistance in mutant KRAS-driven non-small cell lung cancer [p697_ERK5] 12 samples shares fak
- GSE298445 SOX10 regulates melanoma metastasis through the IRF1-ITGA3/EphA2-FAK pathway. 12 samples shares fak
- GSE255643 ERK5 suppression overcomes FAK inhibitor resistance in mutant KRAS-driven non-small cell lung cancer [p826_PND_A549] 9 samples shares fak
- GSE228416 Knockdown of ribosome RNA processing protein 15 (RRP15) suppresses metastasis of hepatocellular carcinoma via LAMC2/FAK pathway 6 samples shares fak
- GSE308768 C1QBP forms a positive feedback loop with the PAICS/FAK/c-Myc axis to promote cholangiocarcinoma proliferation 6 samples shares fak
- GSE271940 FAK regulates trophoblast functions of invasion and proliferation through Rap1 pathway in preeclampsia 6 samples shares fak
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.